mutation predictions | marginal predictions | summary statistics | genome diff | command line log
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breseq version 0.29.0 revision 8f9c342918e4
mutation predictions | marginal predictions | summary statistics | genome diff | command line log |
| Marginal read alignment evidence (highest frequency 20 of 68 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 3,705,984 | 0 | T | G | 43.2% | 254.8 / inf | 236 | intergenic (‑194/+114) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,985 | 0 | T | C | 42.8% | 215.3 / 303.7 | 236 | intergenic (‑195/+113) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,048 | 0 | G | T | 42.2% | 252.1 / 272.0 | 214 | intergenic (‑258/+50) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,017 | 0 | C | T | 40.9% | 207.0 / 231.2 | 215 | intergenic (‑227/+81) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,970 | 0 | G | A | 36.4% | 273.0 / 199.8 | 195 | intergenic (‑180/+128) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,971 | 0 | C | A | 36.4% | 342.4 / 228.6 | 195 | intergenic (‑181/+127) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,705,978 | 0 | A | C | 32.5% | 353.7 / 238.3 | 238 | intergenic (‑188/+120) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 3,706,029 | 0 | T | C | 29.7% | 307.0 / 152.7 | 212 | intergenic (‑239/+69) | dppB/dppA | dipeptide/heme ABC transporter permease/dipeptide/heme ABC transporter periplasmic binding protein; dipeptide chemotaxis receptor |
| * | NC_000913 | 1,224,239 | 0 | A | T | 25.9% | 214.2 / 79.5 | 116 | intergenic (+332/+40) | ycgI/minE | pseudogene/cell division topological specificity factor |
| * | NC_000913 | 1,224,242 | 0 | A | T | 25.9% | 203.8 / 84.5 | 116 | intergenic (+335/+37) | ycgI/minE | pseudogene/cell division topological specificity factor |
| * | NC_000913 | 922,314 | 1 | . | C | 25.8% | 280.6 / 136.2 | 120 | intergenic (+21/+52) | macB/cspD | macrolide ABC transporter peremase/ATPase/inhibitor of DNA replication, cold shock protein homolog |
| * | NC_000913 | 922,321 | 0 | G | . | 25.4% | 316.8 / 109.9 | 118 | intergenic (+28/+45) | macB/cspD | macrolide ABC transporter peremase/ATPase/inhibitor of DNA replication, cold shock protein homolog |
| * | NC_000913 | 1,446,357 | 1 | . | T | 24.1% | 275.5 / 122.6 | 116 | intergenic (+151/+21) | ydbL/feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| * | NC_000913 | 2,653,367 | 0 | G | A | 24.0% | 188.5 / 56.4 | 100 | intergenic (+28/+790) | sseA/sseB | 3‑mercaptopyruvate sulfurtransferase/rhodanase‑like enzyme, sulfur transfer from thiosulfate |
| * | NC_000913 | 4,177,171 | 0 | T | A | 23.8% | 217.2 / 70.8 | 109 | intergenic (+43/‑187) | tufB/secE | translation elongation factor EF‑Tu 2/preprotein translocase membrane subunit |
| * | NC_000913 | 2,724,099 | 0 | T | G | 23.4% | 222.4 / 77.1 | 112 | intergenic (+17/‑29) | pssA/yfiM | phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein |
| * | NC_000913 | 1,446,362 | 0 | A | . | 23.3% | 323.7 / 94.9 | 121 | intergenic (+156/+16) | ydbL/feaR | DUF1318 family protein/transcriptional activator for tynA and feaB |
| * | NC_000913 | 2,724,095 | 0 | C | A | 23.0% | 241.6 / 73.9 | 113 | intergenic (+13/‑33) | pssA/yfiM | phosphatidylserine synthase; CDP‑diacylglycerol‑serine O‑phosphatidyltransferase/putative lipoprotein |
| * | NC_000913 | 1,642,370 | 0 | C | G | 22.6% | 317.1 / 88.3 | 138 | intergenic (+303/+119) | cspF/quuQ | Qin prophage; cold shock protein/Qin prophage; putative antitermination protein Q |
| * | NC_000913 | 3,183,345 | 1 | . | T | 22.5% | 350.5 / 139.6 | 142 | intergenic (+22/+468) | zupT/ribB | zinc transporter/3,4‑dihydroxy‑2‑butanone‑4‑phosphate synthase |
| Marginal new junction evidence (lowest skew 10 of 1540 shown) | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | reads (cov) | reads (cov) | score | skew | freq | annotation | gene | product | ||
| * | ? | NC_000913 | = 4171625 | 0 (0.000) | 89 (0.820) | 19/186 | 9.2 | 100% | intergenic (+81/‑12) | rrlB/rrfB | 23S ribosomal RNA of rrnB operon/5S ribosomal RNA of rrnB operon |
| ? | NC_000913 | = 4213004 | NA (NA) | intergenic (+58/‑36) | rrlE/rrfE | 23S ribosomal RNA of rrnE operon/5S ribosomal RNA of rrnE operon | |||||
| * | ? | NC_000913 | 381292 = | NA (NA) | 55 (0.520) | 18/180 | 9.2 | NA | noncoding (33/1331 nt) | IS2 | repeat region |
| ? | NC_000913 | 381312 = | NA (NA) | noncoding (53/1331 nt) | IS2 | repeat region | |||||
| * | ? | NC_000913 | = 228744 | 61 (0.530) | 89 (0.820) | 19/186 | 9.2 | 60.9% | intergenic (+82/‑12) | rrlH/rrfH | 23S ribosomal RNA of rrnH operon/5S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 4040481 | NA (NA) | intergenic (+58/‑36) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | 2729630 = | NA (NA) | 62 (0.560) | 19/188 | 9.3 | NA | noncoding (1528/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2729652 = | NA (NA) | noncoding (1506/1542 nt) | rrsG | 16S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | 2728214 = | NA (NA) | 35 (0.320) | 19/190 | 9.4 | NA | noncoding (971/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon |
| ? | NC_000913 | 2728240 = | NA (NA) | noncoding (945/2904 nt) | rrlG | 23S ribosomal RNA of rrnG operon | |||||
| * | ? | NC_000913 | = 2204457 | 108 (0.930) | 26 (0.250) | 17/176 | 9.4 | 21.0% | intergenic (+168/‑139) | yehK/yehL | uncharacterized protein/putative hexameric AAA+ MoxR family ATPase |
| ? | NC_000913 | = 2204480 | 100 (0.970) | intergenic (+191/‑116) | yehK/yehL | uncharacterized protein/putative hexameric AAA+ MoxR family ATPase | |||||
| * | ? | NC_000913 | = 226707 | 0 (0.000) | 35 (0.320) | 19/190 | 9.4 | 100% | noncoding (949/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 226725 | NA (NA) | noncoding (967/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 225895 | NA (NA) | 62 (0.580) | 18/184 | 9.5 | NA | noncoding (137/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon |
| ? | NC_000913 | = 225899 | NA (NA) | noncoding (141/2904 nt) | rrlH | 23S ribosomal RNA of rrnH operon | |||||
| * | ? | NC_000913 | = 4040481 | NA (NA) | 89 (0.820) | 18/186 | 9.6 | 100% | intergenic (+58/‑36) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon |
| ? | NC_000913 | = 4040505 | 0 (0.000) | intergenic (+82/‑12) | rrlA/rrfA | 23S ribosomal RNA of rrnA operon/5S ribosomal RNA of rrnA operon | |||||
| * | ? | NC_000913 | = 4168568 | 121 (1.050) | 45 (0.420) | 17/184 | 9.9 | 28.6% | intergenic (+121/‑73) | gltT/rrlB | tRNA‑Glu/23S ribosomal RNA of rrnB operon |
| ? | NC_000913 | = 4209974 | NA (NA) | intergenic (+125/‑69) | gltV/rrlE | tRNA‑Glu/23S ribosomal RNA of rrnE operon | |||||